RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

Searching..................................................done

Query= psy4053
         (74 letters)



>gnl|CDD|237252 PRK12896, PRK12896, methionine aminopeptidase; Reviewed.
          Length = 255

 Score = 27.1 bits (61), Expect = 0.64
 Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 1/26 (3%)

Query: 37  GWRAVVSPPDHPVSQYEFNVLVGADG 62
           GW  VV+P     +Q+E  V+V  DG
Sbjct: 224 GW-TVVTPDKSLSAQFEHTVVVTRDG 248


>gnl|CDD|222398 pfam13816, Dehydratase_hem, Haem-containing dehydratase.  This
          family includes aldoxime dehydratase, EC:4.99.1.5. This
          is a haem-containing enzyme, which catalyzes the
          dehydration of aldoximes to their corresponding
          nitrile. It also includes phenylacetaldoxime
          dehydratase, EC:4.99.1.7. This haem-containing enzyme
          catalyzes the dehydration of Z-phenylacetaldoxime to
          phenylacetonitrile. The enzyme forms an elliptic beta
          barrel, composed of eight beta-strands, flanked by
          alpha-helices.
          Length = 308

 Score = 26.1 bits (58), Expect = 1.6
 Identities = 8/32 (25%), Positives = 11/32 (34%), Gaps = 1/32 (3%)

Query: 36 IGWRAVVSPPDHPVSQYEFNVLVGADGKRNTL 67
          I +       D P +  E      ADG  N +
Sbjct: 22 IRFFKSFDAEDGP-AHVELASHTDADGYDNLI 52


>gnl|CDD|115061 pfam06379, RhaT, L-rhamnose-proton symport protein (RhaT).  This
           family consists of several bacterial L-rhamnose-proton
           symport protein (RhaT) sequences.
          Length = 344

 Score = 25.3 bits (55), Expect = 2.8
 Identities = 12/34 (35%), Positives = 18/34 (52%)

Query: 36  IGWRAVVSPPDHPVSQYEFNVLVGADGKRNTLEG 69
           IG   ++     P+    F+VL+G +G R TL G
Sbjct: 107 IGITLIIGTLMTPIINGNFDVLIGTEGGRMTLLG 140


>gnl|CDD|183678 PRK12681, cysB, transcriptional regulator CysB; Reviewed.
          Length = 324

 Score = 25.2 bits (56), Expect = 3.5
 Identities = 9/17 (52%), Positives = 14/17 (82%), Gaps = 1/17 (5%)

Query: 38  W-RAVVSPPDHPVSQYE 53
           W R+VV PPDHP+++ +
Sbjct: 166 WNRSVVVPPDHPLAKKK 182


>gnl|CDD|237173 PRK12684, PRK12684, transcriptional regulator CysB-like protein;
           Reviewed.
          Length = 313

 Score = 24.6 bits (54), Expect = 5.3
 Identities = 8/12 (66%), Positives = 8/12 (66%), Gaps = 1/12 (8%)

Query: 38  W-RAVVSPPDHP 48
           W   VV PPDHP
Sbjct: 166 WNHCVVVPPDHP 177


>gnl|CDD|193549 cd05674, M20_yscS, M20 Peptidase, carboxypeptidase yscS.  Peptidase
           M20 family, yscS (GlyX-carboxypeptidase, CPS1,
           carboxypeptidase S, carboxypeptidase a, carboxypeptidase
           yscS, glycine carboxypeptidase)-like subfamily. This
           group mostly contains proteins that have been
           uncharacterized to date, but also includes vacuolar
           proteins involved in nitrogen metabolism which are
           essential for use of certain peptides that are sole
           nitrogen sources. YscS releases a C-terminal amino acid
           from a peptide that has glycine as the penultimate
           residue. It is synthesized as one polypeptide chain
           precursor which yields two active precursor molecules
           after carbohydrate modification in the secretory
           pathway. The proteolytically unprocessed forms are
           associated with the membrane, whereas the mature forms
           of the enzyme are soluble.  Enzymes in this subfamily
           may also cleave intracellularly generated peptides in
           order to recycle amino acids for protein synthesis.
          Length = 441

 Score = 24.1 bits (53), Expect = 8.5
 Identities = 9/56 (16%), Positives = 18/56 (32%), Gaps = 6/56 (10%)

Query: 3   IEYVVNQVHGVEIHEGVGFESLLPPPSNQDEEKIGWRAV------VSPPDHPVSQY 52
           +E+V   +  + +   +       P      +   W  +      V  PD  V+ Y
Sbjct: 328 LEHVKRAIDDIAVKYELLLSLSSEPSPVSPTDGPAWELLAGTIRQVYFPDVVVAPY 383


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.313    0.136    0.404 

Gapped
Lambda     K      H
   0.267   0.0744    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,841,578
Number of extensions: 294829
Number of successful extensions: 163
Number of sequences better than 10.0: 1
Number of HSP's gapped: 163
Number of HSP's successfully gapped: 7
Length of query: 74
Length of database: 10,937,602
Length adjustment: 44
Effective length of query: 30
Effective length of database: 8,986,026
Effective search space: 269580780
Effective search space used: 269580780
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (24.2 bits)